SMTL ID : 4blo.2 (1 other biounit)

P4 PROTEIN FROM BACTERIOPHAGE PHI6 IN COMPLEX WITH ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-hexamer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: S.133, E.150, E.153 Ligands: ADP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.133 CA.3: 4 residues within 4Å: Chain B: S.133, E.150, E.153 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.133 CA.5: 5 residues within 4Å: Chain C: S.133, E.150, E.153, D.187 Ligands: ADP.6 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.133 CA.7: 4 residues within 4Å: Chain D: S.133, E.150, E.153 Ligands: ADP.8 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:S.133 CA.9: 4 residues within 4Å: Chain E: S.133, E.150, E.153 Ligands: ADP.10 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:S.133 CA.11: 4 residues within 4Å: Chain F: S.133, E.150, E.153 Ligands: ADP.12 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:S.133

6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 13 residues within 4Å: Chain A: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Chain F: R.264, R.273, F.275 Ligands: CA.1 12 PLIP interactions: 5 interactions with chain F, 7 interactions with chain A Hydrogen bonds: F:R.264, F:R.273, A:G.129, A:S.130, A:G.131, A:K.132, A:S.133, A:I.134 Salt bridges: F:R.273, A:K.132 pi-Stacking: F:F.275, F:F.275 ADP.4: 13 residues within 4Å: Chain A: R.264, R.273, F.275 Chain B: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Ligands: CA.3 12 PLIP interactions: 7 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:G.129, B:S.130, B:G.131, B:K.132, B:S.133, B:I.134, A:R.264, A:R.273 Salt bridges: B:K.132, A:R.273 pi-Stacking: A:F.275, A:F.275 ADP.6: 13 residues within 4Å: Chain B: R.264, R.273, F.275 Chain C: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Ligands: CA.5 11 PLIP interactions: 4 interactions with chain B, 7 interactions with chain C Hydrogen bonds: B:R.264, B:R.273, C:G.129, C:S.130, C:G.131, C:K.132, C:S.133, C:I.134 Salt bridges: B:R.273, C:K.132 pi-Stacking: B:F.275 ADP.8: 13 residues within 4Å: Chain C: R.264, R.273, F.275 Chain D: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Ligands: CA.7 11 PLIP interactions: 4 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:R.264, C:R.273, D:G.129, D:S.130, D:G.131, D:K.132, D:S.133, D:I.134 Salt bridges: C:R.273, D:K.132 pi-Stacking: C:F.275 ADP.10: 13 residues within 4Å: Chain D: R.264, R.273, F.275 Chain E: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Ligands: CA.9 12 PLIP interactions: 5 interactions with chain D, 7 interactions with chain E Hydrogen bonds: D:R.264, D:R.273, E:G.129, E:S.130, E:G.131, E:K.132, E:S.133, E:I.134 Salt bridges: D:R.273, E:K.132 pi-Stacking: D:F.275, D:F.275 ADP.12: 13 residues within 4Å: Chain E: R.264, R.273, F.275 Chain F: A.127, G.129, S.130, G.131, K.132, S.133, I.134, E.153, G.260 Ligands: CA.11 11 PLIP interactions: 4 interactions with chain E, 7 interactions with chain F Hydrogen bonds: E:R.264, F:G.129, F:S.130, F:G.131, F:K.132, F:S.133, F:I.134 Salt bridges: E:R.273, F:K.132 pi-Stacking: E:F.275, E:F.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

El Omari, K. et al., Tracking in Atomic Detail the Functional Specializations in Viral Reca Helicases that Occur During Evolution. Nucleic Acids Res. (2013)

Release Date

2013-08-21

Peptides

PACKAGING ENZYME P4: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

D
F

E
G

F
H

PACKAGING ENZYME P4

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